Regulated breast cancer genes

Abstract

The present invention relates to all facets of novel polynucleotides, the polypeptides they encode, antibodies and specific binding partners thereto, and their applications to research, diagnosis, drug discovery, therapy, clinical medicine, forensic/science and medicine, etc. The polynucleotides are differentially-regulated in breast cancer and are therefore useful in variety of ways, including, but not limited to, as molecular markers, as drug targets, and for detecting, diagnosing, staging, monitoring, predisposition to, etc., diseases and conditions relating to breast cancer.

1 . An isolated polynucleotide comprising a polynucleotide sequence which codes without interruption for a human differentially-regulated breast cancer polynucleotide having an amino acid sequence set forth in SEQ ID NOS 2, 4, 6, 8, 10, 12, 16, 18, 20, 22, 24, 26, 28, 30, 32, 34, 36, 38, 40, 42, 44, 46, 48, 50, 52, 54, 56, 58, 60, 62, 64, 66, 68, 70, 72, 74, 76, 78, 80, 82, 84, 86, 88, 90, 92, 116, 119, 121, 124, 126, 128, 130, 132, 134, 136, 138, 140, 142, 144, 146, or 148, or a complement thereto.  
     
     
         2 . An isolated polynucleotide of  claim 1  having a polynucleotide sequence set forth in selected from SEQ ID NOS 1, 3, 5, 7, 9, 11, 13, 15, 17, 19, 21, 23, 25, 27, 29, 31, 33, 35, 37, 39, 41, 43, 45, 47, 49, 51, 53, 55, 57, 59, 61, 63, 65, 67, 69, 71, 73, 75, 77, 79, 81, 83, 85, 87, 89, 91, 115, 117, 118, 120, 123, 125, 127, 129, 131, 133, 135, 137, 139, 141, 143, 145, or 147.  
     
     
         3 . An isolated polynucleotide comprising, a polynucleotide coding sequence for a human differentially-regulated breast cancer gene having 95% or more nucleotide sequence identity along its entire length to a polynucleotide sequence set forth in SEQ ID NO 1, 3, 5, 7, 9, 11, 13, 15, 17, 19, 21, 23, 25, 27, 29, 31, 33, 35, 37, 39, 41, 43, 45, 47, 49, 51, 53, 55, 57, 59, 61, 63, 65, 67, 69, 71, 73, 75, 77, 79, 81, 83, 85, 87, 89, 91, 115, 117, 118, 120, 123, 125, 127, 129, 131, 133, 135, 137, 139, 141, 143, 145, or 147, and which codes without interruption for said coding sequence, or a complement thereto.  
     
     
         4 . An isolated polynucleotide which is specific for a human differentially-regulated breast cancer gene of  claim 1  and having a nucleotide sequence selected from: SEQ ID NO 1, 3, 5, 7, 9, 11, 13, 15, 17, 19, 21, 23, 25, 27, 29, 31, 33, 35, 37, 39, 41, 43, 45, 47, 49, 51, 53, 55, 57, 59, 61, 63, 65, 67, 69, 71, 73, 75, 77, 79, 81, 83, 85, 87, 89, 91, 115, 117, 118, 120, 123, 125, 127, 129, 131, 133, 135, 137, 139, 141, 143, 145, or 147, or a complement thereto.  
     
     
         5 . An isolated polynucleotide of  claim 4 , wherein said fragment is effective in a polymerase chain reaction.  
     
     
         6 . An isolated polypeptide of  claim 1  which is differentially-regulated in breast cancer having an amino acid sequence set forth in SEQ ID NOS 2, 4, 6, 8, 10, 12, 16, 18, 20, 22, 24, 26, 28, 30, 32, 34, 36, 38, 40, 42, 44, 46, 48, 50, 52, 54, 56, 58, 60, 62, 64, 66, 68, 70, 72, 74, 76, 78, 80, 82, 84, 86, 88, 90, 92, 116, 119, 121, 124, 126, 128, 130, 132, 134, 136, 138, 140, 142, 144, 146, or 148.  
     
     
         7 . An isolated polypeptide which is a human differentially-regulated breast cancer gene having 95% or more amino acid sequence identity along its entire length to an amino acid sequence selected from SEQ ID NOS 2, 4, 6, 8, 10, 12, 16, 18, 20, 22, 24, 26, 28, 30, 32, 34, 36, 38, 40, 42, 44, 46, 48, 50, 52, 54, 56, 58, 60, 62, 64, 66, 68, 70, 72, 74, 76, 78, 80, 82, 84, 86, 88, 90, 92, 116, 119, 121, 124, 126, 128, 130, 132, 134, 136, 138, 140, 142, 144, 146, or 148.  
     
     
         8 . A method of detecting a nucleic acid for a human differentially-regulated breast cancer gene, comprising, 
 contacting a sample comprising nucleic acid with a polynucleotide probe specific for a human differentially-regulated breast cancer gene of  claim 1  under conditions effective for said probe to hybridize specifically with a nucleic acid for said gene, and    detecting hybridization between said probe and said nucleic acid.    
     
     
         9 . A method of  claim 8 , wherein said detecting is performed by: 
 Northern blot analysis, polymerase chain reaction (PCR), reverse transcriptase PCR, RACE PCR, or in situ hybridization.    
     
     
         10 . A method of treating a breast cancer showing elevated expression of a human differentially-regulated breast cancer gene, comprising: 
 administering to a subject in need thereof a therapeutic agent which is effective for regulating expression of a human differentially-regulated breast cancer gene polynucleotide, or polypeptide encoded thereby, of  claim 1 .    
     
     
         11 . A method for identifying an agent that modulates the expression of a human differentially-regulated breast cancer gene in cells expressing said gene, or the biological activity of a polypeptide encoded thereby, comprising, 
 contacting a cell with a test agent under conditions effective for said test agent to modulate the expression of a human gene of  claim 2 , or the biological activity of a polypeptide encoded thereby, in said cell, and    determining whether said test agent modulates said gene or polypeptide.    
     
     
         12 . A method of  claim 11 , wherein said agent is a binding-partner that specifically recognizes said polypeptide.  
     
     
         13 . A method of detecting polymorphisms in a human differentially-regulated breast cancer gene, comprising, 
 comparing the structure of: genomic DNA comprising all or part of a human differentially-regulated breast cancer gene, mRNA comprising all or part of a human differentially-regulated breast cancer gene, cDNA comprising all or part of a human differentially-regulated breast cancer gene, or a polypeptide comprising all or part of a human differentially-regulated breast cancer gene, with the complete structure of a human differentially-regulated breast cancer gene of  claim 2 .    
     
     
         14 . A method of  claim 13 , wherein said polymorphism is a nucleotide deletion, substitution, inversion, or transposition.  
     
     
         15 . A mammalian cell whose genome comprises a functional disruption of a differentially-regulated breast cancer gene homolog of  claim 1  within a nucleotide sequence which is specific for said gene.  
     
     
         16 . A non-human, transgenic mammal comprising a cell of  claim 15 , said mammal being susceptible to breast cancer.  
     
     
         17 . An antibody which is specific-for a polypeptide sequence which is specific for a human differentially-regulated breast cancer gene of  claim 1 .  
     
     
         18 . A method of selecting a human differentially-regulated breast cancer gene polynucleotide or amino acid sequence from a database, comprising: 
 displaying, in a computer-readable medium, a polynucleotide sequence or polypeptide sequence for a human differentially-regulated breast cancer gene of  claim 2 , or complements to the polynucleotides sequence,    wherein said displayed sequences have been retrieved from said database upon selection by a user.